GapMind for Amino acid biosynthesis

 

Alignments for a candidate for dapC in Paraburkholderia bryophila 376MFSha3.1

Align phosphoserine aminotransferase; EC 2.6.1.52 (characterized)
to candidate H281DRAFT_03926 H281DRAFT_03926 phosphoserine aminotransferase apoenzyme

Query= CharProtDB::CH_002572
         (362 letters)



>FitnessBrowser__Burk376:H281DRAFT_03926
          Length = 360

 Score =  399 bits (1026), Expect = e-116
 Identities = 195/358 (54%), Positives = 264/358 (73%), Gaps = 1/358 (0%)

Query: 3   QIFNFSSGPAMLPAEVLKQAQQELRDWNGLGTSVMEVSHRGKEFIQVAEEAEKDFRDLLN 62
           ++FNFS+GPA +P EVL+QA  E+ DW G G SVME+SHRGKEF+ + EEA  D R+LL 
Sbjct: 2   RVFNFSAGPAAMPEEVLRQAADEMLDWQGSGMSVMEMSHRGKEFMSIHEEALLDLRELLA 61

Query: 63  VPSNYKVLFCHGGGRGQFAAVPLNILGDKTTADYVDAGYWAASAIKEAKKYCTPNVFDAK 122
           VP+++++LF  GGG G+ A VP+N+LG K  AD+V  G W+  ++KEA+KY T +V  + 
Sbjct: 62  VPASHRILFLQGGGLGENAIVPMNLLGWKPRADFVVTGSWSQKSLKEAQKYGTVHVAASG 121

Query: 123 VTVDGLRAVKPMREWQLSDNAAYMHYCPNETIDGIAIDETPDFGADVVVAADFSSTILSR 182
            T DG        EWQ+SD+ AY+H C NETI G+   E PD G +V + AD SS ILSR
Sbjct: 122 ETADGFTRAPAFSEWQMSDDPAYVHLCTNETIHGVETFEIPDLG-NVPLVADASSHILSR 180

Query: 183 PIDVSRYGVIYAGAQKNIGPAGLTIVIVREDLLGKANIACPSILDYSILNDNGSMFNTPP 242
           P+D+++YGV++ GAQKNIG AG+T+VIVRED+L +A   CPS  ++  + +N SM+NTPP
Sbjct: 181 PMDIAKYGVLFGGAQKNIGMAGVTVVIVREDMLDRAQAICPSAFEWKTVAENNSMYNTPP 240

Query: 243 TFAWYLSGLVFKWLKANGGVAEMDKINQQKAELLYGVIDNSDFYRNDVAKANRSRMNVPF 302
           T+A Y++GLVFKWLK  GG+A ++  N +K++LLY  ID+S FY N V +++RSRMNVPF
Sbjct: 241 TYAIYIAGLVFKWLKKQGGLAAIEARNLEKSKLLYDTIDSSSFYLNKVERSSRSRMNVPF 300

Query: 303 QLADSALDKLFLEESFAAGLHALKGHRVVGGMRASIYNAMPLEGVKALTDFMVEFERR 360
            LAD + ++ FL  + A G+  LKGH+ VGGMRASIYNA+PLEGVKAL ++M EFE+R
Sbjct: 301 FLADESRNEEFLAGAKARGMVQLKGHKSVGGMRASIYNAVPLEGVKALVEYMKEFEQR 358


Lambda     K      H
   0.319    0.136    0.405 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 385
Number of extensions: 8
Number of successful extensions: 2
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 362
Length of database: 360
Length adjustment: 29
Effective length of query: 333
Effective length of database: 331
Effective search space:   110223
Effective search space used:   110223
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)

Align candidate H281DRAFT_03926 H281DRAFT_03926 (phosphoserine aminotransferase apoenzyme)
to HMM TIGR01364 (serC: phosphoserine transaminase (EC 2.6.1.52))

Software error:

../bin/blast/fastacmd -i /tmp/list.5892.in -d ../tmp/orgsFit/orgs.faa -p T > /tmp/gapView.5892.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.